4AG6 | pdb_00004ag6

Structure of VirB4 of Thermoanaerobacter pseudethanolicus

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	TrwB/VirB4 insert domain-like	8049765	3002354	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	TrwB/VirB4 insert domain-like	8049765	3002354	SCOP2B (2022-06-29)
B	SCOP2 Family	VirB4-like	8018220	4004010	SCOP2 (2022-06-29)
B	SCOP2 Family	VirB4 insert domain-like	8091679	4007755	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	RecA-like P-loop NTPases	8018221	3002019	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	TrwB/VirB4 insert domain-like	8049765	3002354	SCOP2 (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8018221	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	RecA-like P-loop NTPases	8018221	3002019	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	TrwB/VirB4 insert domain-like	8049765	3002354	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D	Bac_DNA_binding	e4ag6D1	A: a/b three-layered sandwiches	X: Lipocalins/Streptavidin	H: Fibronectin type I module-like	T: Fibronectin type I module	F: Bac_DNA_binding	ECOD (v294.1)
C	HLH	e4ag6C1	A: a/b three-layered sandwiches	X: Ribonuclease H-like	H: Ribonuclease H-like	T: Ribonuclease H-like	F: HLH	ECOD (v294.1)
B	V-set	e4ag6B1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)
A	V-set	e4ag6A1	A: a/b three-layered sandwiches	X: beta-Grasp	H: HTH	T: winged helix domain	F: V-set	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	6.10.140.2170	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
D	1.10.8.730	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	1.10.8.730	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	1.10.8.730	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	1.10.8.730	Mainly Alpha	Orthogonal Bundle	Helicase, Ruva Protein	domain 3	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF19044	TraG P-loop domain (P-loop_TraG)	TraG P-loop domain	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	TYPE IV SECRETORY PATHWAY VIRB4 COMPONENTS-LIKE PROTEIN	binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding cation binding ion binding metal ion binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR043964	TraG, P-loop domain	Domain
A, B, C, D	IPR051162	T4SS_component	Unknown
A, B, C, D	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.